Table 4.
Target genes of HNF-1 in liver
| Gene name | Annotation | PWM score | Expression log ratio | Evidence for direct targets | ||
|---|---|---|---|---|---|---|
| Adult liver | Fetal liver | HNF-1 binding P-value | Experimental evidence (PubMed ID) | |||
| ALB | Albumin | 0.4873 | 5.07 | 4.27 | 2.3 × 10−7 | 2693890 |
| FGB | Fibrinogen, B beta polypeptide | 0.4849 | 4.37 | 4.89 | — | 8218230 |
| AFP | Alpha-fetoprotein | 0.4630 | −1.09 | 5.81 | 0.7 | 2479822 |
| CYP2E1 | Cytochrome P450, family 2, subfamily E, polypeptide 1 | 0.4622 | 5.93 | −1.89 | 8.1 × 10−9 | 7710685 |
| GC | Group-specific component (vitamin D binding protein) | 0.4592 | 4.86 | 4.49 | 0.8 | 9774468 |
| FGA | Fibrinogen, A alpha polypeptide | 0.4582 | 4.25 | 4.32 | — | 7499335 |
| GARS | Glycyl-tRNA synthetase | 0.4569 | −2.16 | −0.95 | 4.1 × 10−5 | — |
| APOH | Apolipoprotein H | 0.4533 | 5.32 | 4.77 | 5.0 × 10−8 | 14984368 |
| TXNIP | Thioredoxin interacting protein | 0.4523 | −0.96 | −2.17 | 0.1 | — |
| RPL34 | Ribosomal protein L34, transcript variant 1 | 0.4521 | −2.70 | −1.33 | 0.7 | — |
Characteristics of the predicted targets of HNF-1 among 1000 modeled genes under the given experimental condition. Expression data are log2(Eg/EgC), where Eg is the observed expression level of gene g and EgC is that of the average across all the tissues. In all cases, the mRNA levels change by at least two-fold in adult liver, and also in fetal liver, suggesting liver-specific activity. HNF-1 binding P-values were obtained from Odom et al (2004): P⩽0.001 indicates strong binding. We find evidence for eight of the 10 predicted targets as being direct HNF-1 targets: ALB, FGB, AFP, CYP2E1, GC, FGA, GARS and APOH. The detailed references for reported experimental evidence in the last column are given in Supplementary Table VI.